Array 1 52455-52788 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROP01000009.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN008 contig1_9, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 52455 29 100.0 32 ............................. GATATGGGGCTTGATCTTGATTTATTTAATAC 52516 29 100.0 32 ............................. ACAAAAAAGACGAAACCAAAATCGACGCCGCG 52577 29 100.0 32 ............................. CCGTCATGGCGGATATTCGTCTGATTGGCGAC 52638 29 100.0 32 ............................. GGGATTGCGGGAATTAGTATTAAATCCGGCGT 52699 29 100.0 32 ............................. GAATTGCGGGAATTAATATTAAATCTGGCGTC 52760 29 96.6 0 ............................A | ========== ====== ====== ====== ============================= ================================ ================== 6 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTACAGCCTATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGATGATAAAAAATAGTTTATAAACAACAATATACGTTTAGT # Right flank : AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAG # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [73.3-88.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 110788-107889 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROP01000034.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN008 contig4_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 110787 29 100.0 32 ............................. CGAACACTGGCTTAAGTGCCATTGCTGGAAGT 110726 29 100.0 32 ............................. CGTCATCATACCAACTGCTGGTCGATACGATT 110665 29 100.0 32 ............................. ATAACAGCGGCCACAATATAAACAATGGTTAA 110604 29 100.0 32 ............................. CATTCTGACTAACGCCACCACAATTGCCGCTA 110543 29 100.0 32 ............................. ATGTCAGCGCAGGAGATGGCGGCGACTGCTGG 110482 29 100.0 32 ............................. CGCCGCCCCCATCACAGCACCCCGGCCAGCTT 110421 29 100.0 32 ............................. GTCTTGAGCAGTGGGCGCAAGAGTCTGGTTAT 110360 29 100.0 32 ............................. GAATCGCGGGAATTAATATTAAATCTGGCGTC 110299 29 100.0 32 ............................. CGGGCATTTGCCCGCTTTTCATTACAGTGATT 110238 29 100.0 32 ............................. TTCTGGCAATGGTCTTATTTTTTGAGGTTTAG 110177 29 100.0 32 ............................. GTCACGTGCGGTTATCCTGCAATTTCTGACGA 110116 29 100.0 32 ............................. GTTTACAGCCTGAGCAATGCCGGAATGAATGA 110055 29 100.0 32 ............................. TATTTCAATATTCATTCATTGCAGGCGTAGGA 109994 29 100.0 32 ............................. ACGCGAGCGCCGGTAGTCAGCACATCATTAAA 109933 29 100.0 32 ............................. CATAACCATAACCAAATTGGGTTAATGGCGCC 109872 29 100.0 32 ............................. CCAGCCTCTTCAACGAGTTCGAGAAACGCGGT 109811 29 100.0 32 ............................. TCTGGTCGTCCGAGGCTGAGGCCGAGTGGCTG 109750 29 100.0 32 ............................. CGCACCTGCCGGGACATGACCCTGCCGGAGCT 109689 29 100.0 32 ............................. GCGTTTAAACGCTTTTTTGATATCGGCTTCAG 109628 29 100.0 32 ............................. TTAGAGTTGAAATTGATGGCATTGAACTTGGC 109567 29 100.0 32 ............................. TACCAAAGATACCGCCGCGCTGCTTTCTGGTA 109506 29 100.0 32 ............................. GCATTGCCTGGCTGAGTCCGTCGCTAACTGCG 109445 29 100.0 32 ............................. TAGCTTCTTTGTTCGTGCGGGGCGGATTATGC 109384 29 100.0 32 ............................. CATAATTTACGCGGCCCTTTTTTGGTCACCCA 109323 29 100.0 32 ............................. CGAATAAACAGGCCTGTAACGCGCTCCAGCGT 109262 29 100.0 32 ............................. GCTCCGCCTTGAAAATAACATCTGACATTGTG 109201 29 100.0 32 ............................. TGCCGGGGTTCTGCAGTCTCTATTTTCCTCGC 109140 29 100.0 32 ............................. GAGCTGATAGAGGCCAACCCGGACGCAAAAAT 109079 29 100.0 32 ............................. TGCACATACATCCTCACTTACTGGGTCTGACA 109018 29 100.0 32 ............................. AGCTGTTCGGCGTGGCGGCGTAGCGCCTCGGG 108957 29 100.0 32 ............................. CTGCTGATGTAATGGCCGACGCAGATGCTGTG 108896 29 100.0 32 ............................. AAAGTTGACACAATAGCGAAATCAATTACTGA 108835 29 100.0 33 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCCC 108773 29 100.0 32 ............................. GCGACCTGCTCGACAGCATTCAGTTTGTTGTT 108712 29 100.0 32 ............................. TGATCCAGCCACTTAAACAAAATGATCCACAT 108651 29 100.0 32 ............................. GGCCACACCGACAACCGCAACGGATACAAACA 108590 29 100.0 32 ............................. CAGCCGGAACGACAGCAGCGACAGCGACGTGG 108529 29 100.0 32 ............................. ATATTATAAAAAAAATAATAACCTCTCAGAAA 108468 29 100.0 32 ............................. GTTTGGTTCATCCTGAACGGCGTTCGTGGGGA 108407 29 100.0 32 ............................. CGCCCGCATGATGGCGCGGTTACTTAATGTCA 108346 29 100.0 33 ............................. CGGTATGCTATTGACAGGAGTGAGATTTTAGAT 108284 29 100.0 32 ............................. AATCTTCAGAGGACTCAGATCCTGATTACGTT 108223 29 96.6 32 ............T................ TTGATTACAGTAAAATTTACGTTTATTCAGTC 108162 29 100.0 32 ............................. AAATCTCCACCGTGGATATTTCGGTTATTGGT 108101 29 100.0 32 ............................. ATGTGCGCATTATTGCTAACCATAGAGACTCA 108040 29 100.0 32 ............................. ATATTTTGGCAACTCGTCGTACATTATCGCCA 107979 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 107918 29 100.0 0 ............................. | A [107891] ========== ====== ====== ====== ============================= ================================= ================== 48 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCTCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 129020-127345 **** Predicted by CRISPRDetect 2.4 *** >NZ_AROP01000034.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN008 contig4_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 129019 29 100.0 32 ............................. ATAATCAGGTCGTTAATATTTTTGGTCGCCGC 128958 29 100.0 32 ............................. CCCACGCGGCACAGCTGGCAGAGGACGAAATG 128897 29 100.0 32 ............................. CGCTGGTGTACGACATCGCCGACATGATCAAA 128836 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 128775 29 100.0 32 ............................. TTGCGTCAGGTCGTCGTTTTTTGAGAACGCCA 128714 29 100.0 32 ............................. CTAAATAAAACCTGTAATTGCTCCCAATCGTA 128653 29 100.0 32 ............................. AGGGGCAGCTCCTGGTCGATGAGGTTCTTGAG 128592 29 100.0 32 ............................. CCGTCGGCCTGACAGCCACAGCAGTCAATACA 128531 29 96.6 32 ............................A TGCTGGTCACGCCCGGTTTAGCGGGTAAATTC 128470 29 100.0 32 ............................. TCACGGGGTCCGACGCGGATGTAATGAGTTAT 128409 29 100.0 32 ............................. GCGTTGGCGTCGCCCAACACCATCGCCGGGGC 128348 29 100.0 32 ............................. TTACTGGAACTGTCACTATACGTGGAACGTCG 128287 29 100.0 32 ............................. ACAACCGTCGTTTTCTCCACGACGTCGAGAAG 128226 29 100.0 32 ............................. ATCTCCGGCACGTGCGATAACGGGTCTGATTA 128165 29 100.0 32 ............................. CGACCCAGCGTTACGCGGTAATATTTCGCACC 128104 29 100.0 32 ............................. GACGTTGATTTACACGGCAAAGATACGGAATC 128043 29 100.0 32 ............................. GTACTGGCCTATTCCACATACAGTGGCACGCG 127982 29 100.0 32 ............................. TAGCTTAATCACGGTGCGTCCCTCCTCCGTTC 127921 29 96.6 32 ...C......................... ACCTGATTGAGGTAATCATGAAAAAAATATTA 127860 29 100.0 32 ............................. GCTGGAGCGCAACTGCCAGTGACTACAGAAGC 127799 29 96.6 32 ............T................ AGCACGCCACAGCGCGTAACTGTCGCAATAGA 127738 29 100.0 32 ............................. CGTCTTATCAGGATACCTGCAAACAGATGTTG 127677 29 100.0 32 ............................. ACCCCCCATTTACTGTTATTGTAGGGATAGCC 127616 29 100.0 32 ............................. CGAGCGCGGAATGATTTTTAACGCTGAGATGG 127555 29 100.0 32 ............................. GCTGGAATGGTACGGCTTACCAACTTCCCTGA 127494 29 100.0 32 ............................. TGTTTGCCATTCTCTCGCGTGCTGAGGGAGAC 127433 29 100.0 32 ............................. ATTTGCGTCAGACTACCGACAGGGGCTGGTAT 127372 28 93.1 0 ........................G-... | ========== ====== ====== ====== ============================= ================================ ================== 28 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCGTCGGTGAGCGTTTTTTTTTTTTTTTTTTTTTTTTCTGTGTGATTTTTTTTTTCGGGAATTAATATTAAATCTGGCGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-76.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //